Required input: The presence and absence matrix. ("1" and "0" or missing data "-")Note: presence/absence within a genomes is coded similarly to DNA or amino acids within a gene (e.g., as rows in the Fasta file)

Minimal value for reported co-evolutionary interactions after correction for multiple tests (i.e., the False Discovery Rate cutoff is a lower value derived from the number of tested interactions).
If '1' is selected, all possible co-evolutionary interactions are computed and reported.

Accuracy level of co-evolution inference

Higher accuracy level allow better estimation of the statistical significance for reported co-evolutionary interactions, but result with longer running duration.

Log verbosity level

(+) Advanced co-evolution parameters

Set manually the minimal number of events required in characters to look for co-evolution
Yes
No

Minimal number of events required in characters to look for co-evolution

If character (e.g., genes) have too few evolutionary events, significant co-evolutioanry interactions can not be inferred and thus are omitted)

(+) Evolutionary model

The probabilistic model describing the gain and loss dynamics

Rate distribution

The evolutionary model determines how variability among positions in evolutionary rates is modeled

"Equal rate for all characters": assume that a single evolutionary rate characterizes all sites.

"Gamma": among site rate variation, assuming that the rate is gamma distributed